Open dtaylo95 opened 10 months ago
Hi Dylan,
Hope you had a great Thanksgiving holiday! Here is my resubmission of the week 6 homework. Thank you so much for checking!
Best, Sam
Thanks Sam! I've updated your grade. Great work; there's only one very small issue you'll need to fix for a 10/10
README.md
with commands and analyses2/2
plotting.py
script to produce plots3.75/4
Very minor issue, but it looks like you're plotting ALL of your associations in your manhattan plots, rather than just the genotype associations. To clarify: when you run your GWAS, you include the top PCs as covariates in the regression (this is correct). But this means that you also get regression results for the covariates, not just the variants you're testing. Take a look at the
TEST
column in the.assoc.linear
output file(s) of theplink --linear
command to figure out which results you want to keep/plot.Pretty plots
4/4
Grade
Total: 9.75/10
Great work! Just one very small issue remaining!